RIP-chip-SRM--a new combinatorial large-scale approach identifies a set of translationally regulated bantam/miR-58 targets in C. elegans.
Jovanovic, M, Reiter, L, Clark, A, Weiss, M, Picotti, P, Rehrauer, H, Frei, A, Neukomm, LJ, Kaufman, E, Wollscheid, B , Simard, MJ, Miska, EA, Aebersold, R, Gerber, AP and Hengartner, MO (2012) RIP-chip-SRM--a new combinatorial large-scale approach identifies a set of translationally regulated bantam/miR-58 targets in C. elegans. Genome Res.
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Abstract
MicroRNAs (miRNAs) are small, noncoding RNAs that negatively regulate gene expression. As miRNAs are involved in a wide range of biological processes and diseases, much effort has been invested in identifying their mRNA targets. Here, we present a novel combinatorial approach, RIP-chip-SRM (RNA-binding protein immunopurification + microarray + targeted protein quantification via selected reaction monitoring), to identify de novo high-confidence miRNA targets in the nematode Caenorhabditis elegans. We used differential RIP-chip analysis of miRNA-induced silencing complexes from wild-type and miRNA mutant animals, followed by quantitative targeted proteomics via selected reaction monitoring to identify and validate mRNA targets of the C. elegans bantam homolog miR-58. Comparison of total mRNA and protein abundance changes in mir-58 mutant and wild-type animals indicated that the direct bantam/miR-58 targets identified here are mainly regulated at the level of protein abundance, not mRNA stability.
Item Type: | Article |
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Divisions : | Surrey research (other units) |
Authors : | Jovanovic, M, Reiter, L, Clark, A, Weiss, M, Picotti, P, Rehrauer, H, Frei, A, Neukomm, LJ, Kaufman, E, Wollscheid, B, Simard, MJ, Miska, EA, Aebersold, R, Gerber, AP and Hengartner, MO |
Date : | 19 April 2012 |
DOI : | 10.1101/gr.133330.111 |
Depositing User : | Symplectic Elements |
Date Deposited : | 28 Mar 2017 14:42 |
Last Modified : | 24 Jan 2020 11:41 |
URI: | http://epubs.surrey.ac.uk/id/eprint/531404 |
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